68 lines
1.5 KiB
Nix
68 lines
1.5 KiB
Nix
{
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lib,
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fetchFromGitHub,
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buildPythonPackage,
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numpy,
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cython,
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zlib,
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python-lzo,
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pytestCheckHook,
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setuptools,
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oldest-supported-numpy,
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}:
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buildPythonPackage rec {
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pname = "bx-python";
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version = "0.12.0";
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pyproject = true;
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src = fetchFromGitHub {
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owner = "bxlab";
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repo = "bx-python";
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rev = "refs/tags/v${version}";
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hash = "sha256-ZpZjh7OXdUY7rd692h7VYHzC3qCrDKFme6r+wuG7GP4=";
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};
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postPatch = ''
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# pytest-cython, which provides this option, isn't packaged
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substituteInPlace pytest.ini \
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--replace-fail "--doctest-cython" ""
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'';
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build-system = [
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setuptools
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cython
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oldest-supported-numpy
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];
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buildInputs = [ zlib ];
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dependencies = [ numpy ];
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nativeCheckInputs = [
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python-lzo
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pytestCheckHook
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];
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# https://github.com/bxlab/bx-python/issues/101
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doCheck = false;
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postInstall = ''
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cp -r scripts/* $out/bin
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# This is a small hack; the test suite uses the scripts which need to
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# be patched. Linking the patched scripts in $out back to the
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# working directory allows the tests to run
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rm -rf scripts
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ln -s $out/bin scripts
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'';
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meta = {
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description = "Tools for manipulating biological data, particularly multiple sequence alignments";
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homepage = "https://github.com/bxlab/bx-python";
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changelog = "https://github.com/bxlab/bx-python/releases/tag/v${version}";
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license = lib.licenses.mit;
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maintainers = with lib.maintainers; [ jbedo ];
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platforms = [ "x86_64-linux" ];
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};
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}
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